Hello FreeSurfer Developers,

I'm attempting to apply the CVS output transformation "final_CVSmorph_toSynthF.m3z" to an image different to the one that was used for its estimation. I followed the

steps reported at the bottom of the page https://surfer.nmr.mgh.harvard.edu/fswiki/mri_cvs_register, adjusting the lines for the output files that I obtained from mri_cvs_register. So I called for

createMorph --out fullCVSmorph.tm3d --template MniNick.mgz --subject w_MniNick.mgz --in gcam final_CVSmorph_toSynthF.m3z morph el_reg_toSynthF.mgz

and

applyMorph --template MniNick.mgz --transform fullCVSmorph.tm3d vol w_MniNick.mgz outputvol.nii trilinear

but I encountered the following output when running createMorph:

setting orig areas to linear transform determinant scaled 1.00

atlas geometry = 256 , 256 , 256

image geometry = 256 , 256 , 256

vox 2 ras atlas =

-1.00000 0.00000 0.00000 127.00000;

0.00000 0.00000 1.00000 -145.00000;

0.00000 -1.00000 0.00000 147.00000;

0.00000 0.00000 0.00000 1.00000;

ras 2 vox image =

-1.00000 -0.00000 -0.00000 90.00000;

-0.00000 1.00000 -0.00000 126.00000;

-0.00000 -0.00000 1.00000 72.00000;

-0.00000 -0.00000 -0.00000 1.00000;

product =

1.00000 0.00000 0.00000 -37.00000;

0.00000 0.00000 1.00000 -19.00000;

0.00000 -1.00000 0.00000 219.00000;

0.00000 0.00000 0.00000 1.00000;

transform at origin

-37.00000;

-19.00000;

219.00000;

1.00000;

invalid voxel count = 0

extension = mgz

terminate called after throwing an instance of 'std::bad_alloc'

what(): std::bad_alloc

Aborted (core dumped)

I've searched the mailing list and no similar errors have been reported. The recon-all and mri_cvs_register calls seemed to have correctly terminated. Does anyone have any thoughts on how to trouble-shoot this one?

1) FreeSurfer version: freesurfer-Linux-centos6_x86_64-dev-20161130-24fa2c9

2) Platform: ubuntu 16.04 LTS

3) In the attachment:

3.1) log files of the mri_cvs_register execution;

3.2) log file of the recon-all executions on the moving and fixed images.

Thank you for your consideration.

Stefano.